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Changes for page LFPykit showcase

Last modified by ehagen on 2022/05/27 11:07
From version 11.3
edited by ehagen
on 2022/05/27 10:56
Change comment: There is no comment for this version
To version 4.2
edited by ehagen
on 2021/06/24 14:14
Change comment: There is no comment for this version

Summary

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4 4  (((
5 5  = LFPykit showcase =
6 6  
7 -Demonstration on how to run predictions using LFPykit ([[LFPykit.rtfd.io>>url:https://lfpy.rtfd.io/]], [[github.com/LFPy/LFPkit>>url:https://github.com/LFPy/LFPy]]) on the Collaboratory.
8 -
9 -The LFPykit module provides electrostatic models in a manner that facilitates forward-model predictions of extracellular potentials and related measures from multicompartment neuron models, but without explicit dependencies on neural simulation software such as NEURON ([[https:~~/~~/neuron.yale.edu>>https://neuron.yale.edu]], [[https:~~/~~/github.com/neuronsimulator/nrn>>https://github.com/neuronsimulator/nrn]]), Arbor ([[https:~~/~~/arbor.readthedocs.io>>https://arbor.readthedocs.io]], [[https:~~/~~/github.com/arbor-sim/arbor>>https://github.com/arbor-sim/arbor]]), and LFPy ([[https:~~/~~/LFPy.readthedocs.io>>https://LFPy.readthedocs.io]], [[https:~~/~~/github.com/LFPy/LFPy>>https://github.com/LFPy/LFPy]])
10 -
11 -To use this material, create a new collab and clone [[https:~~/~~/github.com/LFPy/LFPykit>>https://github.com/LFPy/LFPykit]] into it.
12 -
13 -The LFPykit package can be installed as
14 -
15 -{{{!pip install . # or !pip install LFPykit}}}
16 -
17 -in a jupyter notebook. Different usage with LFPy, NEURON and Arbor are provided in different notebooks located in the examples directory. Missing packages resulting in ImportError and similar can usually be installed issuing
18 -
19 -{{{!pip install <missing-package-name>}}}
20 -
21 -which may require a kernel restart to take effect.
22 -
23 -Using the **Official EBRAINS Docker image** in the Lab is recommended as LFPykit and neural simulators (Arbor, NEURON, LFPy) is preinstalled. For new notebooks/console sessions use the **EBRAINS_experimental_release** (or select this as a kernel and restart when opening notebooks).
7 +Demonstration on how to run predictions using LFPykit ([[LFPykit.rtfd.io>>url:https://lfpy.rtfd.io/]], [[github.com/LFPy/LFPy>>url:https://github.com/LFPy/LFPy]]) on the Collaboratory.
24 24  )))
25 25  )))
26 26  
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